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mmu_circRock1_274
Basic information of circular RNA
PanCircBase ID:
mmu_circRock1_274
mm39_Chr. Position ID:
chr18|10106321|10116862|-
Gene name:
Rock1
Transcript:
ENSMUST00000067947.7
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
14,13,12
Exon/intron offsets:
0,6022,10452
Genomic length:
10541
Exon/intron sizes in nt:
136,49,89
Flanking exon/introns:
chr18:10104509-10106321|chr18:10116862-10119884
Splice length:
274
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
CAGGAAAGTTTACAGAAAACAATCTACAAGCTTGAAGAGCAACTGCATAATGAAATGCAATTAAAAGATGAAATGGAGCAGAAATGCAGAACTTCAAACTTAAAACTAGACAAGATAATGAAAGAATTGGATGAAGAGGGGAATCAAAGAAGAAATCTAGAATCTGCAGTGTCTCAAATTGAGAAAGAAAAGATGTTGCTACAACATAGAATTAATGAGTACCAAAGAAAAGTGGAACAGGAAAATGAGAAGAGAAGAAATATAGAAAATGAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ACCAAAGAAAAGTGGAACAGGA
58.02
GCATTTCTGCTCCATTTCATCT
57.35
141
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ACCAAAGAAAAGTGGAACAGGA
58.02
GCATTTCTGCTCCATTTCATCTT
57.99
141
PCR template sequence:
CAAATTGAGAAAGAAAAGATGTTGCTACAACATAGAATTAATGAGTACCAAAGAAAAGTGGAACAGGAAAATGAGAAGAGAAGAAATATAGAAAATGAAGCAGGAAAGTTTACAGAAAACAATCTACAAGCTTGAAGAGCAACTGCATAATGAAATGCAATTAAAAGATGAAATGGAGCAGAAATGCAGAACTTCAAACT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
3
Interacting miRNAs (#binding sites)
mmu-miR-9-5p(1), mmu-miR-136-5p(1), mmu-miR-1904(1)
siRNAs for circular RNA silencing
Junction sequence
ATAGAAAATGAAGCAGGAAAGTTTAC
siRNA sets
CTTTCCTGCTTCATTTTCT, TTTCCTGCTTCATTTTCTA, TAAACTTTCCTGCTTCATT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCROCK1_274_ORF_1
1.0958
0.100824247
0.311624059
279
ORF sequence:
ATGAAGCAGGAAAGTTTACAGAAAACAATCTACAAGCTTGAAGAGCAACTGCATAATGAAATGCAATTAAAAGATGAAATGGAGCAGAAATGCAGAACTTCAAACTTAAAACTAGACAAGATAATGAAAGAATTGGATGAAGAGGGGAATCAAAGAAGAAATCTAGAATCTGCAGTGTCTCAAATTGAGAAAGAAAAGATGTTGCTACAACATAGAATTAATGAGTACCAAAGAAAAGTGGAACAGGAAAATGAGAAGAGAAGAAATATAGAAAATGAA
Peptide sequence:
MKQESLQKTIYKLEEQLHNEMQLKDEMEQKCRTSNLKLDKIMKELDEEGNQRRNLESAVSQIEKEKMLLQHRINEYQRKVEQENEKRRNIENE
IRESfinder result
IRESfinder score
0.550139608
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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